Re: [Bioc-devel] Adding a lengths() method to List class

2015-09-29 Thread Cook, Malcolm
Yay m- thx From: Michael Lawrence [mailto:lawrence.mich...@gene.com] Sent: Tuesday, September 29, 2015 11:16 AM To: Cook, Malcolm Cc: Michael Lawrence ; Peter Hickey ; bioc-devel@r-project.org Subject: Re: [Bioc-devel] Adding

Re: [Bioc-devel] Problem with the git mirror when committing to SVN

2015-09-29 Thread Jesper Gådin
Hi Diego, You were right, my previous example I sent before stopped working for me as well, and I were thrown back in the git svn rebase conflict loop again. I have just tried another solution, based on the idea that the local master and the local devel branch got separated early in the bioc

Re: [Bioc-devel] Adding a lengths() method to List class

2015-09-29 Thread Cook, Malcolm
Dumb question (?) follows in line: > That is the plan. Note that we already have elementLengths() that serves the > same purpose. It was the direct inspiration for lengths(). Why have both? > > On Mon, Sep 28, 2015 at 9:41 PM, Peter Hickey > wrote: > > > The

Re: [Bioc-devel] Adding a lengths() method to List class

2015-09-29 Thread Michael Lawrence
The plan is to move to only having lengths(). On Tue, Sep 29, 2015 at 9:02 AM, Cook, Malcolm wrote: > Dumb question (?) follows in line: > > > That is the plan. Note that we already have elementLengths() that serves > the > > same purpose. It was the direct inspiration for

Re: [Bioc-devel] S4 classes extending GRangesList

2015-09-29 Thread Leonard Goldstein
Great, thank you Hervé. Best wishes, Leonard On Tue, Sep 29, 2015 at 2:07 PM, Hervé Pagès wrote: > Hi Leonard, > > Fixed in IRanges 2.3.22 (devel) and 2.2.8 (release). Now the "c" method > for CompressedList objects should always return an object of the same > class as

Re: [Bioc-devel] S4 classes extending GRangesList

2015-09-29 Thread Hervé Pagès
Hi Leonard, Fixed in IRanges 2.3.22 (devel) and 2.2.8 (release). Now the "c" method for CompressedList objects should always return an object of the same class as its 1st argument. Thanks for your patience and for the reminder. H. On 09/29/2015 10:35 AM, Leonard Goldstein wrote: Hi Hervé,

Re: [Bioc-devel] S4 classes extending GRangesList

2015-09-29 Thread Leonard Goldstein
Hi Hervé, This still looks broken in the current bioc-devel. Just wanted to follow up in case it got missed. Thanks again. Leonard On Thu, Jun 11, 2015 at 11:59 AM, Leonard Goldstein wrote: > Thanks Hervé. > > Best wishes, > > Leonard > > > On Thu, Jun 11, 2015 at 10:58